Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 201 of 216
Found at i:62475665 original size:17 final size:17
Alignment explanation
Indices: 62475637--62475670 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62475627 ATTATAACTA
*
62475637 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
62475654 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
62475671 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:62478986 original size:18 final size:17
Alignment explanation
Indices: 62478959--62478993 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62478949 TTGTTATTAA
*
62478959 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62478977 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62478994 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62479130 original size:156 final size:157
Alignment explanation
Indices: 62478846--62479161 Score: 544
Period size: 156 Copynumber: 2.0 Consensus size: 157
62478836 TAGAATACCC
*
62478846 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * ** * *
62478911 TTATCAGTAATAAATTTTTTAATCATATTTAAACATAATTGTTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
62478976 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
62479002 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
62479067 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
62479132 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
62479159 TTA
1 TTA
62479162 ATATTCTTAT
Statistics
Matches: 150, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
156 143 0.95
157 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:62479132 original size:16 final size:16
Alignment explanation
Indices: 62479095--62479136 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62479085 TTAATCATAT
*
62479095 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
62479111 TT-AAATATATTATAA
1 TTAAAATATATTATAA
62479126 TTAAAATATAT
1 TTAAAATATAT
62479137 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:62479143 original size:14 final size:15
Alignment explanation
Indices: 62479104--62479145 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62479094 TTTAAACATA
*
62479104 ATTATTATTAAATAT
1 ATTATAATTAAATAT
62479119 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
62479133 A-TATAATTTAATA
1 ATTATAATTAAATA
62479146 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:62479195 original size:61 final size:60
Alignment explanation
Indices: 62479130--62479317 Score: 174
Period size: 61 Copynumber: 3.1 Consensus size: 60
62479120 TTATAATTAA
62479130 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATACGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA-GAATTTACTCAAATCAT
* * * * * * * *
62479191 AATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTATTA-AATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTA-TAGAATTTACTCA-AATCA
*
62479249 A
60 T
62479250 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA-GAATTTACTCAAATCAT
62479311 AATATAT
1 AATATAT
62479318 GATACTGTAA
Statistics
Matches: 95, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 28 0.29
60 14 0.15
61 35 0.37
62 5 0.05
63 4 0.04
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAGAATTTACTCAAATCAT
Found at i:62479232 original size:120 final size:121
Alignment explanation
Indices: 62479093--62479399 Score: 491
Period size: 120 Copynumber: 2.6 Consensus size: 121
62479083 ATTTAATCAT
*
62479093 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
62479158 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGT-AAATGA-AA
62479215 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
62479278 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
66 ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
* * * * *
62479334 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA-ATAATT-TAAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
62479396 ATTA
66 ATTA
62479400 TAACTAATAA
Statistics
Matches: 176, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
118 9 0.05
119 12 0.07
120 150 0.85
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATACGAATTTACTCAAATCATAATATATGATACTGTAAATGAAA
Found at i:62479263 original size:14 final size:15
Alignment explanation
Indices: 62479214--62479265 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
62479204 GTAAAATATA
62479214 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
62479229 TATTAAATATATTAT
1 AATTAAATATATTAT
62479244 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
62479257 AATTTAATA
1 AATTAAATA
62479266 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:62479436 original size:99 final size:93
Alignment explanation
Indices: 62479333--62479612 Score: 252
Period size: 92 Copynumber: 3.0 Consensus size: 93
62479323 TGTAAATGAA
* * *
62479333 AATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAAATAATTTA-AATAA
1 AATTTAAAATAATTAATATTAAATATAATTTAATT-AAATA-AT-A-TTAAAT--TTCATAA-AA
* * *
62479397 TT-ATAACTAATAAATTATATTTTATGAATTTGTAT
59 TTCATAA-TAATAAATTATATTATATGAATTTATAC
* * * *
62479432 AATTTAAAATAA-TAATTATTACATATAATTTAA-TAATTAATATTAAATTTCATAAAATTCTTG
1 AATTTAAAATAATTAA-TATTAAATATAATTTAATTAAATAATATTAAATTTCATAAAATTCATA
* *
62479495 ATAATAAATTTTCTTATATGAATTTATAC
65 ATAATAAATTATATTATATGAATTTATAC
* * *
62479524 AATTTAAAATAATTAATATTAAATATAATTTAA-T-AGTGATA-TATAATTTCATAAAATTCTTA
1 AATTTAAAATAATTAATATTAAATATAATTTAATTAAATAATATTA-AATTTCATAAAATTCATA
*
62479586 ATAATAAAATGT-TTTTATATGAATTTA
65 ATAAT-AAAT-TATATTATATGAATTTA
62479613 CTAAAATCAA
Statistics
Matches: 157, Mismatches: 17, Indels: 21
0.81 0.09 0.11
Matches are distributed among these distances:
90 2 0.01
91 27 0.17
92 77 0.49
93 8 0.05
94 6 0.04
95 1 0.01
96 2 0.01
97 4 0.03
98 4 0.03
99 26 0.17
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.46
Consensus pattern (93 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATTAAATAATATTAAATTTCATAAAATTCATAA
TAATAAATTATATTATATGAATTTATAC
Found at i:62479475 original size:24 final size:25
Alignment explanation
Indices: 62479429--62479476 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
62479419 TATGAATTTG
62479429 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
62479455 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
62479477 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:62479502 original size:92 final size:91
Alignment explanation
Indices: 62479404--62479612 Score: 260
Period size: 92 Copynumber: 2.3 Consensus size: 91
62479394 TAATTATAAC
* * *
62479404 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTTTATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAAT-A
* *
62479468 TTAATAT-TAAATTTCATAAAATTCTTGA
64 GTAATATAT-AATTTCATAAAATTCTTAA
* * *
62479496 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTTTATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
*
62479561 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
* * *
62479587 TAATAAAATGTTTTTATATGAATTTA
1 TAATAAATTATATTT-TATGAATTTA
62479613 CTAAAATCAA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
91 35 0.35
92 63 0.62
93 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTTTATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
AATATATAATTTCATAAAATTCTTAA
Found at i:62485735 original size:16 final size:15
Alignment explanation
Indices: 62485697--62485738 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
62485687 TCTAAAACAG
62485697 TAAAATTTTAATTTA
1 TAAAATTTTAATTTA
*
62485712 -AACCATTTATAATTTA
1 TAA-AATTT-TAATTTA
62485728 TAAAATTTTAA
1 TAAAATTTTAA
62485739 ATTAATAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
14 2 0.09
15 7 0.32
16 11 0.50
17 2 0.09
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATTTTAATTTA
Found at i:62492113 original size:27 final size:28
Alignment explanation
Indices: 62492078--62492139 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
62492068 TTTGAAGTTT
*
62492078 AAATATCTGACCCC-AAAT-TTAAAAAATA
1 AAAT-TCTGACCCCAAAATCGTAAAAAA-A
62492106 AAATTCTGACCCCAAAATCGTAAAAAAA
1 AAATTCTGACCCCAAAATCGTAAAAAAA
62492134 AAATTC
1 AAATTC
62492140 AAAGTTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.29
28 15 0.48
29 7 0.23
ACGTcount: A:0.53, C:0.19, G:0.05, T:0.23
Consensus pattern (28 bp):
AAATTCTGACCCCAAAATCGTAAAAAAA
Found at i:62492130 original size:28 final size:27
Alignment explanation
Indices: 62492078--62492136 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
62492068 TTTGAAGTTT
* *
62492078 AAATATCTGACCCCAAATTTAAAAAATA
1 AAAT-TCTGACCCCAAATGTAAAAAAAA
62492106 AAATTCTGACCCCAAAATCGTAAAAAAAA
1 AAATTCTGACCCC-AAAT-GTAAAAAAAA
62492135 AA
1 AA
62492137 TTCAAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 8 0.30
29 10 0.37
ACGTcount: A:0.56, C:0.19, G:0.05, T:0.20
Consensus pattern (27 bp):
AAATTCTGACCCCAAATGTAAAAAAAA
Found at i:62492248 original size:13 final size:11
Alignment explanation
Indices: 62492215--62492256 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
62492205 AAAATAATAC
62492215 ATTTTAAATAAA
1 ATTTTAAA-AAA
62492227 ATTTTAAAAAA
1 ATTTTAAAAAA
62492238 ATATATT-AAAAA
1 AT-T-TTAAAAAA
62492250 ATTTTAA
1 ATTTTAA
62492257 CACCCGTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.07
11 7 0.26
12 16 0.59
13 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:62495432 original size:22 final size:19
Alignment explanation
Indices: 62495384--62495434 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
62495374 TAATATGAAT
*
62495384 TAAAAATTTTAATTAATTA
1 TAAAAATTTTAATTAATGA
62495403 -AAAGAATTATTATATTTAATGA
1 TAAA-AATT-TTA-A-TTAATGA
62495425 TAAAAATTTT
1 TAAAAATTTT
62495435 TAAAGGGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
18 3 0.12
19 4 0.15
20 3 0.12
21 3 0.12
22 10 0.38
23 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
TAAAAATTTTAATTAATGA
Found at i:62506346 original size:41 final size:41
Alignment explanation
Indices: 62506289--62506445 Score: 174
Period size: 41 Copynumber: 3.8 Consensus size: 41
62506279 TTTTGTAAGT
62506289 TCAGGCTTTATGCCTAGCAGGCTTTATGCAGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCAGGTGAATTATA
*
62506330 TCAGGCTTTATGCCTAGCAGGC-TCAGTGCCA-GTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTA-TG-CAGGTGAATTATA
* * * * * * *
62506371 TCAGACCTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCAGGTGAATTATA
* * * *
62506412 TCGGGCTTTGTGCCTAGTAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTATGCAGGTG
62506446 TTTTATACAA
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 3 0.03
41 90 0.94
42 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTATGCAGGTGAATTATA
Found at i:62507369 original size:139 final size:137
Alignment explanation
Indices: 62507226--62507482 Score: 309
Period size: 139 Copynumber: 1.8 Consensus size: 137
62507216 ATGTATTATG
* * *
62507226 TATATGCTGCCCATTTGTTATATATATATACTGTTCAATTTTGGTGTAAAAATATTGCTCAATTT
1 TATATGCTGCCCATTTG--ATATATATATACTGTTAAATTTTGGTGTAAAAATACTGCTAAATTT
* * * *
62507291 GGTATATATATGCTGCCTAATTGTTGTATATCTATGCTGT-TAAATTTTGGTGTAAAGTGGTGTT
64 GGTATATATATGCTGCCCAATTG-T-TATATATAAGCTGTCCAAATTTTGGTGTAAAGTGGTGTT
62507355 AAATTTGGTATA
127 AAATTTGG-ATA
* * * * * * * *
62507367 TATATGTTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGG
1 TATATGCTGCCCATTTGATATATATATACTGTTAAATTTTGGTGTAAAAATACTGCTAAATTTGG
* *
62507432 TATGTATATGCTGCCCATTTGTTATATATAAGCTGTCCAAATTTTGGTGTA
66 TATATATATGCTGCCCAATTGTTATATATAAGCTGTCCAAATTTTGGTGTA
62507483 TAAATGTTGT
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
137 12 0.12
138 14 0.14
139 57 0.58
141 15 0.15
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (137 bp):
TATATGCTGCCCATTTGATATATATATACTGTTAAATTTTGGTGTAAAAATACTGCTAAATTTGG
TATATATATGCTGCCCAATTGTTATATATAAGCTGTCCAAATTTTGGTGTAAAGTGGTGTTAAAT
TTGGATA
Found at i:62507407 original size:24 final size:23
Alignment explanation
Indices: 62507323--62507429 Score: 80
Period size: 22 Copynumber: 4.7 Consensus size: 23
62507313 GTTGTATATC
62507323 TATGCTGTTAAATTTTGGTGTAA
1 TATGCTGTTAAATTTTGGTGTAA
* *
62507346 -AGTGGTGTTAAA-TTTGGTATATA
1 TA-TGCTGTTAAATTTTGGTGTA-A
* * *
62507369 TATGTTGCCT--A-TTTGCTGTATA
1 TATGCTG-TTAAATTTTGGTGTA-A
62507391 TATGCTGTTAAATTTTGGTGTAA
1 TATGCTGTTAAATTTTGGTGTAA
*
62507414 AAGTGCTGTTAAATTT
1 TA-TGCTGTTAAATTT
62507430 GGTATGTATA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
21 1 0.02
22 25 0.38
23 17 0.26
24 23 0.35
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (23 bp):
TATGCTGTTAAATTTTGGTGTAA
Found at i:62507452 original size:69 final size:69
Alignment explanation
Indices: 62507226--62507482 Score: 300
Period size: 69 Copynumber: 3.7 Consensus size: 69
62507216 ATGTATTATG
* * * ** * *
62507226 TATATGCTGCCCATTTGTTATATATATATACTGTTCAATTTTGGTGTAAAAATATTGCTCAATTT
1 TATATGCTGCCCATTTG-T-TATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTT
62507291 GGTATA
64 GGTATA
* * * *
62507297 TATATGCTGCCTAATTGTTGTATATCTATGCTGTTAAATTTTGGTGT-AAAGTGGTGTTAAATTT
1 TATATGCTGCCCATTTG-T-TATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTT
62507361 GGTATA
64 GGTATA
* * * *
62507367 TATATGTTGCCTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGG
1 TATATGCTGCCCATTTGTTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGG
*
62507432 TATG
66 TATA
* *
62507436 TATATGCTGCCCATTTGTTATATATAAGCTGTCCAAATTTTGGTGTA
1 TATATGCTGCCCATTTGTTATATATATGCTGT-TAAATTTTGGTGTA
62507483 TAAATGTTGT
Statistics
Matches: 160, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
68 25 0.16
69 48 0.30
70 46 0.29
71 41 0.26
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (69 bp):
TATATGCTGCCCATTTGTTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGG
TATA
Found at i:62508349 original size:63 final size:65
Alignment explanation
Indices: 62508282--62508409 Score: 188
Period size: 63 Copynumber: 2.0 Consensus size: 65
62508272 TTTTATAAAC
* * * *
62508282 ATGTATATACACATACTTTTATATTTTTTTTATATTTCATAA-TTCT-TATATACATATATATAT
1 ATGTATATACACATACTTGTATATATTTTTTATATTTCATAATTTATATATATACATACATATAT
* *
62508345 ATGTATATATACATACTTGTATATATTTTTTATATTTTATAATTTATATATATACATACATATAT
1 ATGTATATACACATACTTGTATATATTTTTTATATTTCATAATTTATATATATACATACATATAT
62508410 CTTTTTACAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 38 0.67
64 3 0.05
65 16 0.28
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (65 bp):
ATGTATATACACATACTTGTATATATTTTTTATATTTCATAATTTATATATATACATACATATAT
Found at i:62508393 original size:39 final size:41
Alignment explanation
Indices: 62508350--62508430 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 41
62508340 TATATATGTA
* ** *
62508350 TATATACATACTTGTATATAT-TTTTTATA-TTTTATAATT
1 TATATACATACATACATATATCTTTTTACATTTTTATAATT
*
62508389 TATATATATACATACATATATCTTTTTACATTTTTATAATT
1 TATATACATACATACATATATCTTTTTACATTTTTATAATT
62508430 T
1 T
62508431 TATTCATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 17 0.49
40 7 0.20
41 11 0.31
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (41 bp):
TATATACATACATACATATATCTTTTTACATTTTTATAATT
Found at i:62508409 original size:41 final size:42
Alignment explanation
Indices: 62508348--62508430 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 42
62508338 TATATATATG
*
62508348 TATATATACATACTTGTATATAT-TTTTTATA-TTTTATAATTTA
1 TATATATACATAC---TATATATCTTTTTACATTTTTATAATTTA
62508391 TATATATACATAC-ATATATCTTTTTACATTTTTATAATTT
1 TATATATACATACTATATATCTTTTTACATTTTTATAATTT
62508431 TATTCATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
39 6 0.16
40 7 0.19
41 11 0.30
43 13 0.35
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.57
Consensus pattern (42 bp):
TATATATACATACTATATATCTTTTTACATTTTTATAATTTA
Found at i:62522023 original size:126 final size:126
Alignment explanation
Indices: 62521791--62522310 Score: 751
Period size: 126 Copynumber: 4.1 Consensus size: 126
62521781 GGCCAAACAT
* * *
62521791 GAACTACTGTAGAAAAATAGCGTCAACGTAGG-AGCTTTTTTCA-TCAATTTTGCTGATAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGT-GGAAGCTTTTTTCAGT-AATTTTGCTGACAGTGCA
*
62521854 TCCTGCTTGAAGCATTTTTGACACTATTTGTTCATAACCGTCTTCTCAAAATTATTTTTTCAG
64 TCCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
*
62521917 GAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCATTAATTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * * *
62521982 CTCCTTGAAGCGTTTTTGACACTATTTATTCAGAACTGTCTTCTCAAAATTATTTTTTTAA
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * * *
62522043 GAACTACTGTAAAAAAAGAGCGTCCACAT-GAGAGCTTTTTTTAGTAATTTTGCTGACAATGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGA-AGCTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * * *
62522107 CCTGCTTGAAGCGTTTTTGATACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAT
65 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * * * *
62522169 GAACCACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTCCAGTAATTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
62522234 CTGCTTGAAACATTTTTGACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTT-AG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
62522294 GAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
62522311 AAATAAAATC
Statistics
Matches: 352, Mismatches: 38, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
125 21 0.06
126 329 0.93
127 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
Found at i:62522418 original size:34 final size:33
Alignment explanation
Indices: 62522370--62522479 Score: 114
Period size: 34 Copynumber: 3.3 Consensus size: 33
62522360 CACAATATTA
* * * *
62522370 TTTTAAAAAAACTAAATCTTAATTTAATTAAATT
1 TTTTAAAAACACTAAACCCTAATTAAATT-AATT
*
62522404 TTTTAAAAACACTAAACCCTAATTAAATTTATT
1 TTTTAAAAACACTAAACCCTAATTAAATTAATT
* *
62522437 TATTT-AAAACCCTTAAACCCTAATTGAATTAATT
1 T-TTTAAAAACAC-TAAACCCTAATTAAATTAATT
*
62522471 TTTAAAAAA
1 TTTTAAAAA
62522480 GAATATTAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
33 12 0.19
34 52 0.81
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.40
Consensus pattern (33 bp):
TTTTAAAAACACTAAACCCTAATTAAATTAATT
Found at i:62522553 original size:21 final size:21
Alignment explanation
Indices: 62522524--62522594 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
62522514 TAAAATCTAG
*
62522524 AACCTTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
** *** **
62522545 AACCCTAAACCATACAAACCT
1 AACCCTAAATTATTTTAACAA
*
62522566 AACTCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
62522587 AACCCTAA
1 AACCCTAA
62522595 CCTTAAAAAC
Statistics
Matches: 33, Mismatches: 17, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCCTAAATTATTTTAACAA
Found at i:62527774 original size:20 final size:20
Alignment explanation
Indices: 62527744--62527789 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
62527734 CTCCCCCACA
62527744 TATAT-AAAGCATGATCCAT
1 TATATGAAAGCATGATCCAT
62527763 TATATGAAAGCATGATCCAT
1 TATATGAAAGCATGATCCAT
62527783 TATATGA
1 TATATGA
62527790 CGATGACGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
TATATGAAAGCATGATCCAT
Found at i:62528252 original size:16 final size:17
Alignment explanation
Indices: 62528199--62528257 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
62528189 AAGTAGTTAG
62528199 TAAATTTTTCGATCCT-
1 TAAATTTTTCGATCCTA
**
62528215 TAAATTTTTTTTCGATGATA
1 TAAA---TTTTTCGATCCTA
62528235 TAAATTTTTCGAT-CTA
1 TAAATTTTTCGATCCTA
62528251 TACAATT
1 TA-AATT
62528258 GAGCTTTCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
16 8 0.23
17 13 0.37
19 10 0.29
20 4 0.11
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.51
Consensus pattern (17 bp):
TAAATTTTTCGATCCTA
Found at i:62528475 original size:28 final size:28
Alignment explanation
Indices: 62528427--62528487 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
62528417 CCACGTTGCA
62528427 TGCTTGTATTAATGGCTGCTTCCATCACT
1 TGCTTGTATTAATGGCTGCTTCCATCA-T
*
62528456 TGCTTGTGTT-ATGG-TAGCTTCCATCAT
1 TGCTTGTATTAATGGCT-GCTTCCATCAT
62528483 TGCTT
1 TGCTT
62528488 ACATCATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 7 0.23
28 14 0.47
29 9 0.30
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (28 bp):
TGCTTGTATTAATGGCTGCTTCCATCAT
Found at i:62530705 original size:19 final size:18
Alignment explanation
Indices: 62530627--62530707 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 18
62530617 AAAAGATTCT
62530627 ATTCAAGAAATTGTTT-G
1 ATTCAAGAAATTGTTTCG
*
62530644 AATCCAAGAAATTGTTTTCG
1 -ATTCAAGAAATTG-TTTCG
* * * *
62530664 ATTCAA-ACGAGTAGATTCT
1 ATTCAAGA--AATTGTTTCG
62530683 ATTCAAGAAATTGTTTTCG
1 ATTCAAGAAATTG-TTTCG
62530702 ATTCAA
1 ATTCAA
62530708 ACGAGTTTTG
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
18 16 0.34
19 26 0.55
20 5 0.11
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
ATTCAAGAAATTGTTTCG
Found at i:62536770 original size:88 final size:89
Alignment explanation
Indices: 62536620--62536786 Score: 291
Period size: 88 Copynumber: 1.9 Consensus size: 89
62536610 GCTTAATTCT
* *
62536620 TAAATAATTCATCATCTTTCTATGTGTTTCAAAACATAATTAGAACCTGCATGACTTCTAATGAC
1 TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACCTGCATGACTTATAATGAC
62536685 GATT-TCCCCCCCAAGTTCCTAAG
66 GATTCTCCCCCCCAAGTTCCTAAG
*
62536708 TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACGTGCATGACTTATAATGAC
1 TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACCTGCATGACTTATAATGAC
62536773 GATTCCTCCCCCCC
66 GATT-CTCCCCCCC
62536787 CCCCCAAGTT
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
88 66 0.89
90 8 0.11
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (89 bp):
TAAATAATTCATCATCTTTCTATGTATTTCAAAACATAATTAGAACCTGCATGACTTATAATGAC
GATTCTCCCCCCCAAGTTCCTAAG
Found at i:62540785 original size:36 final size:36
Alignment explanation
Indices: 62540738--62540810 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
62540728 CTAGTATTTG
62540738 TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
1 TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
62540774 TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
1 TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
62540810 T
1 T
62540811 CTTTTCTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
TTGATGTCTCTTTTTCTAGAAAAGGAAAAAAAACTT
Found at i:62541509 original size:19 final size:19
Alignment explanation
Indices: 62541485--62541525 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
62541475 TTAAGCTCCT
*
62541485 CATGTGCTTTTTTGAAATC
1 CATGTGCTCTTTTGAAATC
62541504 CATGTGCTCTTTTGAAATC
1 CATGTGCTCTTTTGAAATC
62541523 CAT
1 CAT
62541526 AAAGTATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (19 bp):
CATGTGCTCTTTTGAAATC
Found at i:62545980 original size:4 final size:4
Alignment explanation
Indices: 62545965--62545999 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
62545955 AACATATACA
*
62545965 TATG TCTG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
62546000 AAACTCCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:62547623 original size:18 final size:17
Alignment explanation
Indices: 62547600--62547644 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
62547590 AAGTTAAAAT
62547600 ACTTTTTAAATGATTTTA
1 ACTTTTTAAATG-TTTTA
*
62547618 ACTTTTAAAATGTTTTA
1 ACTTTTTAAATGTTTTA
62547635 A-TTATTTAAA
1 ACTT-TTTAAA
62547645 ATTATATTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 11 0.46
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (17 bp):
ACTTTTTAAATGTTTTA
Found at i:62547645 original size:18 final size:18
Alignment explanation
Indices: 62547600--62547646 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
62547590 AAGTTAAAAT
*
62547600 ACTTTTTAAATGATTTTA
1 ACTTTTAAAATGATTTTA
62547618 ACTTTTAAAATG-TTTTA
1 ACTTTTAAAATGATTTTA
*
62547635 ATTATTTAAAAT
1 ACT-TTTAAAAT
62547647 TATATTGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (18 bp):
ACTTTTAAAATGATTTTA
Found at i:62570085 original size:28 final size:28
Alignment explanation
Indices: 62570032--62570087 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
62570022 TGAATGAATA
*
62570032 TTTTTAATTAATAAATAGTATGAAATAAT
1 TTTTTAATTAATAAATA-TATAAAATAAT
62570061 TTTTTAATTTAATAAAT-TATAAAATAA
1 TTTTTAA-TTAATAAATATATAAAATAA
62570088 ATATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 7 0.28
30 9 0.36
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTTTTAATTAATAAATATATAAAATAAT
Found at i:62570699 original size:14 final size:15
Alignment explanation
Indices: 62570664--62570704 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
62570654 TCTTCTCTCT
62570664 AATAAAAATTTTGAG
1 AATAAAAATTTTGAG
*
62570679 AATAAAAATTTTTAG
1 AATAAAAATTTTGAG
62570694 AA-AAAAGATTT
1 AATAAAA-ATTT
62570705 AATAGTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
AATAAAAATTTTGAG
Found at i:62576722 original size:29 final size:32
Alignment explanation
Indices: 62576690--62576749 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 32
62576680 TTTTTGCTTC
62576690 TTTCTTCAATCTAG-CCC-AATTGT-TTCCTT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
* *
62576719 TTTCTTCTATTTAGCCCCAAATTGTATTCCT
1 TTTCTTCAATCTAGCCCCAAATTGTATTCCT
62576750 GCAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 12 0.46
30 3 0.12
31 6 0.23
32 5 0.19
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (32 bp):
TTTCTTCAATCTAGCCCCAAATTGTATTCCTT
Found at i:62577817 original size:19 final size:20
Alignment explanation
Indices: 62577793--62577844 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
62577783 GTTTTCCTAC
*
62577793 AAAAATAAAATAA-AATAGT
1 AAAAATAAAATAATAATAGG
62577812 AAAAATAAATAATAATAATAGG
1 AAAAAT-AA-AATAATAATAGG
*
62577834 AAAATTAAAAT
1 AAAAATAAAAT
62577845 TTTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 5 0.18
21 7 0.25
22 10 0.36
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAATAAAATAATAATAGG
Found at i:62585515 original size:17 final size:17
Alignment explanation
Indices: 62585486--62585791 Score: 294
Period size: 17 Copynumber: 18.0 Consensus size: 17
62585476 AGCCAGCTCG
62585486 CATAACTCA-CATATAAA
1 CATAACT-AGCATATAAA
*
62585503 CATAGCTAGCATATAAA
1 CATAACTAGCATATAAA
* *
62585520 CACAACTTGCATATAAA
1 CATAACTAGCATATAAA
* *
62585537 CATAGCTCGCATATAAA
1 CATAACTAGCATATAAA
* *
62585554 CACAACTCGCATATAAA
1 CATAACTAGCATATAAA
*
62585571 CATAGCTAGCATATAAA
1 CATAACTAGCATATAAA
* *
62585588 CACAACTTGCATATAAA
1 CATAACTAGCATATAAA
* *
62585605 CATAGCTCGCATATAAA
1 CATAACTAGCATATAAA
* *
62585622 CACAACTCGCATATAAA
1 CATAACTAGCATATAAA
*
62585639 CATAGCTAGCATATAAA
1 CATAACTAGCATATAAA
* *
62585656 CACAACTTGCATATAAA
1 CATAACTAGCATATAAA
* *
62585673 CATAGCTCGCATATAAA
1 CATAACTAGCATATAAA
* *
62585690 CACAACTTGCATATAAA
1 CATAACTAGCATATAAA
*
62585707 CACAACTCA-CATATAAA
1 CATAACT-AGCATATAAA
* *
62585724 CATAGCTCGCATATAAA
1 CATAACTAGCATATAAA
* *
62585741 CACAACTAGCATAGAAA
1 CATAACTAGCATATAAA
* * **
62585758 CATAGCTTGTTTATAAA
1 CATAACTAGCATATAAA
62585775 CATAACTCA-CATATAAA
1 CATAACT-AGCATATAAA
62585792 TATATATGTA
Statistics
Matches: 235, Mismatches: 50, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
16 1 0.00
17 234 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (17 bp):
CATAACTAGCATATAAA
Found at i:62585538 original size:34 final size:34
Alignment explanation
Indices: 62585495--62585791 Score: 400
Period size: 34 Copynumber: 8.7 Consensus size: 34
62585485 GCATAACTCA
62585495 CATATAAACATAGCTAGCATATAAACACAACTTG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
* *
62585529 CATATAAACATAGCTCGCATATAAACACAACTCG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
62585563 CATATAAACATAGCTAGCATATAAACACAACTTG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
* *
62585597 CATATAAACATAGCTCGCATATAAACACAACTCG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
62585631 CATATAAACATAGCTAGCATATAAACACAACTTG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
*
62585665 CATATAAACATAGCTCGCATATAAACACAACTTG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
* * * * *
62585699 CATATAAACACAACTCA-CATATAAACATAGCTCG
1 CATATAAACATAGCT-AGCATATAAACACAACTTG
* * * * *
62585733 CATATAAACACAACTAGCATAGAAACATAGCTTG
1 CATATAAACATAGCTAGCATATAAACACAACTTG
** *
62585767 TTTATAAACATAACTCA-CATATAAA
1 CATATAAACATAGCT-AGCATATAAA
62585792 TATATATGTA
Statistics
Matches: 239, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
33 1 0.00
34 237 0.99
35 1 0.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (34 bp):
CATATAAACATAGCTAGCATATAAACACAACTTG
Found at i:62588017 original size:34 final size:34
Alignment explanation
Indices: 62587979--62588049 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
62587969 TTATGATACC
62587979 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
1 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
62588013 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
1 ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
62588047 ACT
1 ACT
62588050 TCTGTCATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (34 bp):
ACTAAAAAAGGGCTATTATAGGTGAATTGTCTTT
Found at i:62589117 original size:38 final size:37
Alignment explanation
Indices: 62589037--62589117 Score: 85
Period size: 38 Copynumber: 2.2 Consensus size: 37
62589027 TAATCACTTT
*
62589037 AATATTAAATTAATATAATACTTATCAAGATAAATAT
1 AATATTAAATTAATATAATACTTATCAAGATAAATAG
* * *
62589074 TATATTAAATTTAATATTAA-ATCTTATTAA-ATGAATAG
1 AATATTAAA-TTAATA-TAATA-CTTATCAAGATAAATAG
62589112 AATATT
1 AATATT
62589118 TATCTACAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
37 8 0.22
38 18 0.50
39 10 0.28
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (37 bp):
AATATTAAATTAATATAATACTTATCAAGATAAATAG
Found at i:62604594 original size:2 final size:2
Alignment explanation
Indices: 62604582--62604619 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
62604572 AAATAGGAAG
62604582 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62604620 ATGGTTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:62612160 original size:22 final size:22
Alignment explanation
Indices: 62612130--62612174 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
62612120 TGCCATGAAT
*
62612130 TTATTTATATAAAATAAAAAAA
1 TTATGTATATAAAATAAAAAAA
*
62612152 TTATGTATATAAATTAAAAAAA
1 TTATGTATATAAAATAAAAAAA
62612174 T
1 T
62612175 ATTAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TTATGTATATAAAATAAAAAAA
Found at i:62612984 original size:24 final size:24
Alignment explanation
Indices: 62612957--62613003 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
62612947 TTGATTTTTT
*
62612957 AATTAAAAAATAAATAAA-TAAATA
1 AATT-AAAAATAAAGAAACTAAATA
*
62612981 AATTTAAAATAAAGAAACTAAAT
1 AATTAAAAATAAAGAAACTAAAT
62613004 TAATCTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (24 bp):
AATTAAAAATAAAGAAACTAAATA
Found at i:62613505 original size:12 final size:11
Alignment explanation
Indices: 62613486--62613519 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
62613476 TCAATTATTT
62613486 TCTCAATTTCC
1 TCTCAATTTCC
* *
62613497 TCTCAAATTGC
1 TCTCAATTTCC
62613508 TCTCAATTTCC
1 TCTCAATTTCC
62613519 T
1 T
62613520 TCCAAATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:62613511 original size:22 final size:22
Alignment explanation
Indices: 62613486--62613532 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
62613476 TCAATTATTT
62613486 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTGC
*
62613508 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTGC
62613530 TCT
1 TCT
62613533 TAAATCCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.21, C:0.32, G:0.02, T:0.45
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTGC
Found at i:62614693 original size:7 final size:7
Alignment explanation
Indices: 62614681--62614706 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
62614671 TAGTCAATTG
62614681 GTATTTA
1 GTATTTA
62614688 GTATTTA
1 GTATTTA
62614695 GTATTTA
1 GTATTTA
62614702 GTATT
1 GTATT
62614707 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:62615512 original size:21 final size:21
Alignment explanation
Indices: 62615487--62615534 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
62615477 CCAACACCGA
62615487 CAACCAG-ATACCCTACCGGAG
1 CAACCAGAAT-CCCTACCGGAG
* *
62615508 GAACCAGAATCCCTGCCGGAG
1 CAACCAGAATCCCTACCGGAG
62615529 CAACCA
1 CAACCA
62615535 CAACCCCCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.33, C:0.38, G:0.21, T:0.08
Consensus pattern (21 bp):
CAACCAGAATCCCTACCGGAG
Found at i:62615546 original size:21 final size:21
Alignment explanation
Indices: 62615502--62615546 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
62615492 AGATACCCTA
* * * *
62615502 CCGGAGGAACCAGAATCCCTG
1 CCGGAGCAACCACAACCCCCG
62615523 CCGGAGCAACCACAACCCCCG
1 CCGGAGCAACCACAACCCCCG
62615544 CCG
1 CCG
62615547 AAAGCTGAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.44, G:0.24, T:0.04
Consensus pattern (21 bp):
CCGGAGCAACCACAACCCCCG
Found at i:62615751 original size:17 final size:19
Alignment explanation
Indices: 62615729--62615776 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
62615719 AACCCTAAAC
62615729 TAATTTATTAA-AAA-TTA
1 TAATTTATTAATAAATTTA
62615746 TAATTTA-TAATTAAATTTA
1 TAATTTATTAA-TAAATTTA
62615765 TAATTTAATTAA
1 TAATTT-ATTAA
62615777 CAAACCCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.12
17 7 0.27
18 3 0.12
19 9 0.35
20 1 0.04
21 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATTTATTAATAAATTTA
Found at i:62615764 original size:12 final size:12
Alignment explanation
Indices: 62615741--62615774 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
62615731 ATTTATTAAA
62615741 AATTATAATTTAT
1 AATTA-AATTTAT
62615754 AATTAAATTTAT
1 AATTAAATTTAT
*
62615766 AATTTAATT
1 AATTAAATT
62615775 AACAAACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTAAATTTAT
Found at i:62615793 original size:12 final size:12
Alignment explanation
Indices: 62615778--62615836 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
62615768 TTTAATTAAC
62615778 AAACCCTAACAA
1 AAACCCTAACAA
**
62615790 AAACCCTAACCC
1 AAACCCTAACAA
*
62615802 TAACCCTTAACTTAA
1 AAACCC-TAAC--AA
*
62615817 AAACCCTAATAA
1 AAACCCTAACAA
62615829 AAACCCTA
1 AAACCCTA
62615837 GCCCTAGCCC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
12 25 0.68
13 4 0.11
14 3 0.08
15 5 0.14
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (12 bp):
AAACCCTAACAA
Found at i:62615823 original size:39 final size:41
Alignment explanation
Indices: 62615769--62615871 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 41
62615759 AATTTATAAT
62615769 TTAA-TTAACAAACCCTAACAAAAACCCTA-A-CCCTAACCC
1 TTAACTTAA-AAACCCTAACAAAAACCCTACAGCCCTAACCC
*
62615808 TTAACTTAAAAACCCTAATAAAAACCCTAGCCCTAGCCCTAACCC
1 TTAACTTAAAAACCCTAACAAAAACCCTA---C-AGCCCTAACCC
62615853 TTAACTTAAAAACCCTAAC
1 TTAACTTAAAAACCCTAAC
62615872 CCTAACCCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 23 0.42
40 4 0.07
44 1 0.02
45 27 0.49
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (41 bp):
TTAACTTAAAAACCCTAACAAAAACCCTACAGCCCTAACCC
Found at i:62615863 original size:33 final size:27
Alignment explanation
Indices: 62615838--62616221 Score: 153
Period size: 27 Copynumber: 14.6 Consensus size: 27
62615828 AAAACCCTAG
*
62615838 CCCTAGCCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTAACCCTTAACTTAAAAA
62615865 CCCTAACCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTAACCCTTAACTTAAAAA
*
62615892 CACC-AA----AACCC-TAA-TAAAAACCCTA
1 C-CCTAACCCTAACCCTTAACTTAAAA----A
*
62615917 GCCCTAACACTAACCCTTAACTTAAAAA
1 -CCCTAACCCTAACCCTTAACTTAAAAA
62615945 CCCTAACCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTAACCCTTAACTTAAAAA
* * * ***
62615972 CTCTTAA-CTTAA----AAACACCAAAA
1 C-CCTAACCCTAACCCTTAACTTAAAAA
*** * *
62615995 CCCTAACAAAAACCC-TAGCCTT---CA
1 CCCTAACCCTAACCCTTA-ACTTAAAAA
*
62616019 CCCTAACCCTTAA--CTTAA--AAACACTAA
1 CCCTAACCC-TAACCCTTAACTTAA-A--AA
* * *
62616046 CACTAACCTTAACCTTTAACTTAAAAA
1 CCCTAACCCTAACCCTTAACTTAAAAA
*
62616073 CCCTAACCCTAACCCTTAACTTGAAAA
1 CCCTAACCCTAACCCTTAACTTAAAAA
*
62616100 CACC-AA----AA-CCTTAAC-AAAAACCCTA
1 C-CCTAACCCTAACCCTTAACTTAAAA----A
*
62616125 GCCCTAACCCTAACCTTTAACTTAAAAA
1 -CCCTAACCCTAACCCTTAACTTAAAAA
62616153 CCCTAACCCTAACCCTTAACTTAAAAA
1 CCCTAACCCTAACCCTTAACTTAAAAA
* * **
62616180 CACCAAAACTCTAA-TGTTAAC--AAAAA
1 C-CC-TAACCCTAACCCTTAACTTAAAAA
62616206 CCCTAACCCTAACCCT
1 CCCTAACCCTAACCCT
62616222 AATCTGATAT
Statistics
Matches: 264, Mismatches: 46, Indels: 96
0.65 0.11 0.24
Matches are distributed among these distances:
21 8 0.03
22 14 0.05
23 18 0.07
24 17 0.06
25 11 0.04
26 16 0.06
27 124 0.47
28 21 0.08
29 8 0.03
30 9 0.03
31 9 0.03
32 9 0.03
ACGTcount: A:0.43, C:0.35, G:0.02, T:0.21
Consensus pattern (27 bp):
CCCTAACCCTAACCCTTAACTTAAAAA
Found at i:62615906 original size:80 final size:80
Alignment explanation
Indices: 62615816--62615972 Score: 296
Period size: 80 Copynumber: 2.0 Consensus size: 80
62615806 CCTTAACTTA
* *
62615816 AAAACCCTAATAAAAACCCTAGCCCTAGCCCTAACCCTTAACTTAAAAACCCTAACCCTAACCCT
1 AAAACCCTAATAAAAACCCTAGCCCTAACACTAACCCTTAACTTAAAAACCCTAACCCTAACCCT
62615881 TAACTTAAAAACACC
66 TAACTTAAAAACACC
62615896 AAAACCCTAATAAAAACCCTAGCCCTAACACTAACCCTTAACTTAAAAACCCTAACCCTAACCCT
1 AAAACCCTAATAAAAACCCTAGCCCTAACACTAACCCTTAACTTAAAAACCCTAACCCTAACCCT
62615961 TAACTTAAAAAC
66 TAACTTAAAAAC
62615973 TCTTAACTTA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (80 bp):
AAAACCCTAATAAAAACCCTAGCCCTAACACTAACCCTTAACTTAAAAACCCTAACCCTAACCCT
TAACTTAAAAACACC
Found at i:62615948 original size:15 final size:15
Alignment explanation
Indices: 62615928--62615987 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
62615918 CCCTAACACT
62615928 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
62615943 AACCC-TAACCCT---
1 AACCCTTAA-CTTAAA
62615955 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
*
62615970 AACTCTTAACTTAAA
1 AACCCTTAACTTAAA
62615985 AAC
1 AAC
62615988 ACCAAAACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 7 0.19
13 3 0.08
14 3 0.08
15 24 0.65
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (15 bp):
AACCCTTAACTTAAA
Found at i:62615948 original size:95 final size:93
Alignment explanation
Indices: 62615863--62616060 Score: 276
Period size: 95 Copynumber: 2.1 Consensus size: 93
62615853 TTAACTTAAA
*
62615863 AACCC-TAACCCT-AACCCTTAACTTAAAAACACCAAAACCCTAATAAAAACCCTAGCCCTAACA
1 AACCCTTAA-CCTAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCTAACA
62615926 CTAACCCTTAACTTAAAAACCCTAACCCT
65 CTAACCCTTAACTTAAAAACCCTAACCCT
* * * *
62615955 AACCCTTAACTTAAAAACTCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCTTCAC
1 AACCCTTAACCT--AAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCTAAC
* * *
62616020 CCTAACCCTTAACTTAAAAACACTAACACT
64 ACTAACCCTTAACTTAAAAACCCTAACCCT
62616050 AA-CCTTAACCT
1 AACCCTTAACCT
62616061 TTAACTTAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
92 7 0.08
93 3 0.03
94 8 0.09
95 75 0.81
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.20
Consensus pattern (93 bp):
AACCCTTAACCTAAACCCTTAACTTAAAAACACCAAAACCCTAACAAAAACCCTAGCCCTAACAC
TAACCCTTAACTTAAAAACCCTAACCCT
Found at i:62616148 original size:80 final size:82
Alignment explanation
Indices: 62616035--62616223 Score: 283
Period size: 80 Copynumber: 2.3 Consensus size: 82
62616025 CCCTTAACTT
* * * *
62616035 AAAAACACTAACACTAACCTTAACCTTTAACTTAAAAACCCTAACCCTAACCCTTAACTTGAAAA
1 AAAAACCCTAACCCTAACCCTAACCTTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAA
62616100 CACCAAAAC-C-TTAAC
66 CACCAAAACTCATTAAC
*
62616115 AAAAACCCTAGCCCTAACCCTAACCTTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAA
1 AAAAACCCTAACCCTAACCCTAACCTTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAA
62616180 CACCAAAACTCTAATGTTAAC
66 CACCAAAACTC--A--TTAAC
62616201 AAAAACCCTAACCCTAACCCTAA
1 AAAAACCCTAACCCTAACCCTAA
62616224 TCTGATATAA
Statistics
Matches: 97, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
80 69 0.71
81 1 0.01
86 27 0.28
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.21
Consensus pattern (82 bp):
AAAAACCCTAACCCTAACCCTAACCTTTAACTTAAAAACCCTAACCCTAACCCTTAACTTAAAAA
CACCAAAACTCATTAAC
Found at i:62616426 original size:22 final size:23
Alignment explanation
Indices: 62616401--62616449 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
62616391 TAATTTGATA
* *
62616401 TAATTGTAATAACAAT-TAGTTT
1 TAATTGTAATAAAAATATAATTT
*
62616423 TAATTTTAATAAAAATATAATTT
1 TAATTGTAATAAAAATATAATTT
62616446 TAAT
1 TAAT
62616450 AACTTGGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TAATTGTAATAAAAATATAATTT
Found at i:62617962 original size:30 final size:30
Alignment explanation
Indices: 62617922--62617989 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
62617912 AATTTATCGG
* *
62617922 TTTATAATTTTTA-AACAATTAAATTA-AATT
1 TTTATCATTTTTAGAA-AATTAAAGTATAA-T
62617952 TTTATCA-TTTTAGAAAATTAAAGTATAAT
1 TTTATCATTTTTAGAAAATTAAAGTATAAT
62617981 TTTATCATT
1 TTTATCATT
62617990 ACTAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (30 bp):
TTTATCATTTTTAGAAAATTAAAGTATAAT
Found at i:62619901 original size:28 final size:30
Alignment explanation
Indices: 62619865--62619928 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
62619855 TTTATCTCCT
*
62619865 AAATGAATAAAA-TATTTAATTTAT-T-TTAA
1 AAAT-AATAAAATTA-TAAATTTATATATTAA
62619894 AAATAATAAAATTATAAATTTATATATTAA
1 AAATAATAAAATTATAAATTTATATATTAA
62619924 AAATA
1 AAATA
62619929 TATGATTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 15 0.48
29 7 0.23
30 9 0.29
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (30 bp):
AAATAATAAAATTATAAATTTATATATTAA
Found at i:62621698 original size:27 final size:27
Alignment explanation
Indices: 62621660--62621712 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
62621650 CTGCTATGCG
62621660 GCATAGCTTAGCATCAAACACTGCATA
1 GCATAGCTTAGCATCAAACACTGCATA
62621687 GCATAGCTTAGCATCAAACACTGCAT
1 GCATAGCTTAGCATCAAACACTGCAT
62621713 TATGCTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (27 bp):
GCATAGCTTAGCATCAAACACTGCATA
Found at i:62623919 original size:6 final size:6
Alignment explanation
Indices: 62623908--62623934 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
62623898 GAAATTAAAT
62623908 GGGAAG GGGAAG GGGAAG GGGAAG GGG
1 GGGAAG GGGAAG GGGAAG GGGAAG GGG
62623935 TGTCGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:62625036 original size:9 final size:9
Alignment explanation
Indices: 62625022--62625058 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
62625012 TATAGTTTGA
62625022 TATTCGAAT
1 TATTCGAAT
62625031 TATTCGAAT
1 TATTCGAAT
*
62625040 TATTCGAGT
1 TATTCGAAT
62625049 TATTCGAAT
1 TATTCGAAT
62625058 T
1 T
62625059 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:62627255 original size:3 final size:3
Alignment explanation
Indices: 62627249--62627303 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
62627239 TATTAGACTT
62627249 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62627297 TAA TAA T
1 TAA TAA T
62627304 GAAATGATCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:62632256 original size:19 final size:20
Alignment explanation
Indices: 62632232--62632272 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
62632222 ATCCCACATC
62632232 TTTTTT-AATATTATTGAGT
1 TTTTTTAAATATTATTGAGT
62632251 TTTTTTAAATATTATTGAGT
1 TTTTTTAAATATTATTGAGT
62632271 TT
1 TT
62632273 GATTACTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (20 bp):
TTTTTTAAATATTATTGAGT
Found at i:62648513 original size:107 final size:107
Alignment explanation
Indices: 62648327--62648541 Score: 405
Period size: 107 Copynumber: 2.0 Consensus size: 107
62648317 AGGCTTCAGT
62648327 ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTTTCTCTAATAATTCCCTTAATATA
1 ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTTTCTCTAATAATTCCCTTAATATA
62648392 TAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
66 TAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
*
62648434 ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTTAT-TCTAATAATTCCCTTATTAT
1 ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTT-TCTCTAATAATTCCCTTAATAT
62648498 ATAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
65 ATAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
62648541 A
1 A
62648542 AATTGAAGAA
Statistics
Matches: 106, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 105 0.99
108 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.36
Consensus pattern (107 bp):
ATATTATAAGCCCAAAACAACTATAAGCTTTAAACTCTTTTTTCTCTAATAATTCCCTTAATATA
TAATAAATATAAGTATAAATAATATAATTAAGAACATAAATA
Found at i:62651127 original size:20 final size:20
Alignment explanation
Indices: 62651102--62651177 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
62651092 AATCTTTTGC
**
62651102 TGTTTGAATCGATTGTTTAT
1 TGTTTGAATCGATTCATTAT
62651122 TGTTTGAATCGATTCATTAT
1 TGTTTGAATCGATTCATTAT
** * *
62651142 TGTTTGAATTAATTCTTTGT
1 TGTTTGAATCGATTCATTAT
62651162 TGTTT-AACTCGATTCA
1 TGTTTGAA-TCGATTCA
62651178 AAACCCAACA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
19 2 0.04
20 44 0.96
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (20 bp):
TGTTTGAATCGATTCATTAT
Found at i:62651147 original size:40 final size:40
Alignment explanation
Indices: 62651102--62651177 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
62651092 AATCTTTTGC
* *
62651102 TGTTTGAATCGATTGTTTATTGTTTGAA-TCGATTCATTAT
1 TGTTTGAATCAATTCTTTATTGTTT-AACTCGATTCATTAT
* *
62651142 TGTTTGAATTAATTCTTTGTTGTTTAACTCGATTCA
1 TGTTTGAATCAATTCTTTATTGTTTAACTCGATTCA
62651178 AAACCCAACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.06
40 29 0.94
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (40 bp):
TGTTTGAATCAATTCTTTATTGTTTAACTCGATTCATTAT
Found at i:62655223 original size:46 final size:41
Alignment explanation
Indices: 62655149--62655274 Score: 130
Period size: 46 Copynumber: 3.0 Consensus size: 41
62655139 TTGTAGCCAC
* *
62655149 TTTGAATCGATTGTTTGTTGTTTAAATCAATTCTTTGTTTCG
1 TTTGAATCGATTCTTTGTTGTTTGAATCAATTCTTTGTTT-G
*
62655191 TTGATTGACTCGATTCTTTTGTTGTTTGAATCAATT-TTT-TATTG
1 -T--TTGAATCGATTC-TTTGTTGTTTGAATCAATTCTTTGT-TTG
* * *
62655235 TTTGAATTGATTCATTATTGTTTGAATCAATTCTTTGTTT
1 TTTGAATCGATTCTTTGTTGTTTGAATCAATTCTTTGTTT
62655275 TTTAACTTGA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
40 17 0.24
41 15 0.21
42 1 0.01
43 2 0.03
44 2 0.03
45 15 0.21
46 18 0.26
ACGTcount: A:0.20, C:0.09, G:0.15, T:0.56
Consensus pattern (41 bp):
TTTGAATCGATTCTTTGTTGTTTGAATCAATTCTTTGTTTG
Found at i:62655258 original size:40 final size:40
Alignment explanation
Indices: 62655212--62655288 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
62655202 GATTCTTTTG
*
62655212 TTGTTTGAATCAATTTTTTATTGTTTGAA-TTGATTCATTA
1 TTGTTTGAATCAATTCTTTATT-TTTGAACTTGATTCATTA
* *
62655252 TTGTTTGAATCAATTCTTTGTTTTTTAACTTGATTCA
1 TTGTTTGAATCAATTCTTTATTTTTGAACTTGATTCA
62655289 AACCCTAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 5 0.15
40 28 0.85
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.57
Consensus pattern (40 bp):
TTGTTTGAATCAATTCTTTATTTTTGAACTTGATTCATTA
Found at i:62655267 original size:20 final size:20
Alignment explanation
Indices: 62655212--62655267 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
62655202 GATTCTTTTG
**
62655212 TTGTTTGAATCAATTTTTTA
1 TTGTTTGAATCAATTCATTA
**
62655232 TTGTTTGAATTGATTCATTA
1 TTGTTTGAATCAATTCATTA
62655252 TTGTTTGAATCAATTC
1 TTGTTTGAATCAATTC
62655268 TTTGTTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (20 bp):
TTGTTTGAATCAATTCATTA
Found at i:62661393 original size:12 final size:12
Alignment explanation
Indices: 62661376--62661400 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62661366 GGTGTTCATT
62661376 CGGTTAACCGAC
1 CGGTTAACCGAC
62661388 CGGTTAACCGAC
1 CGGTTAACCGAC
62661400 C
1 C
62661401 TGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:62661579 original size:19 final size:19
Alignment explanation
Indices: 62661528--62661583 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
62661518 ATTTTTGGTT
62661528 AAAAATTACCCGAATTAACCG
1 AAAAA-TACCCGAATT-ACCG
* *
62661549 --AATTAACCGAATTACCG
1 AAAAATACCCGAATTACCG
62661566 AAAAATACCCGAATTACC
1 AAAAATACCCGAATTACC
62661584 CGAATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
19 16 0.55
ACGTcount: A:0.46, C:0.25, G:0.09, T:0.20
Consensus pattern (19 bp):
AAAAATACCCGAATTACCG
Found at i:62661585 original size:9 final size:9
Alignment explanation
Indices: 62661531--62661589 Score: 66
Period size: 9 Copynumber: 6.4 Consensus size: 9
62661521 TTTGGTTAAA
62661531 AATTACCCG
1 AATTACCCG
*
62661540 AATTAACCG
1 AATTACCCG
*
62661549 AATTAACCG
1 AATTACCCG
62661558 AATTA-CCG
1 AATTACCCG
*
62661566 AAAAATACCCG
1 --AATTACCCG
62661577 AATTACCCG
1 AATTACCCG
62661586 AATT
1 AATT
62661590 TTTTTTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
8 3 0.07
9 34 0.77
10 4 0.09
11 3 0.07
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:62664262 original size:17 final size:18
Alignment explanation
Indices: 62664236--62664274 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
62664226 CTAACTGTGG
62664236 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
62664252 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
62664270 AAAAT
1 AAAAT
62664275 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:62664452 original size:15 final size:15
Alignment explanation
Indices: 62664432--62664462 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62664422 AAAACAATAT
62664432 AACTCTAGACCTTTC
1 AACTCTAGACCTTTC
*
62664447 AACTCTTGACCTTTC
1 AACTCTAGACCTTTC
62664462 A
1 A
62664463 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (15 bp):
AACTCTAGACCTTTC
Found at i:62667831 original size:15 final size:15
Alignment explanation
Indices: 62667821--62667850 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62667811 TCCCTTCTTG
62667821 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
62667836 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
62667851 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:62668618 original size:17 final size:18
Alignment explanation
Indices: 62668592--62668630 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
62668582 CAAATTGTGG
62668592 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
62668608 AAAATTGTTCTCTAATAT
1 AAAATTGTTCTCTAATAT
62668626 AAAAT
1 AAAAT
62668631 CAAAAGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.19
17 7 0.33
18 10 0.48
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:62668808 original size:15 final size:15
Alignment explanation
Indices: 62668788--62668818 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62668778 AAAACAATAT
62668788 AACTCTAGACCTTTC
1 AACTCTAGACCTTTC
*
62668803 AACTCTTGACCTTTC
1 AACTCTAGACCTTTC
62668818 A
1 A
62668819 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (15 bp):
AACTCTAGACCTTTC
Found at i:62674936 original size:20 final size:19
Alignment explanation
Indices: 62674903--62674974 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
62674893 CTCTCACAAC
62674903 AAAAATTACAAAATAATTAT
1 AAAAATT-CAAAATAATTAT
*
62674923 AAATAATTCAAAATAATTTT
1 AAA-AATTCAAAATAATTAT
* * *
62674943 AAAATTTTAAAATATTTAT
1 AAAAATTCAAAATAATTAT
62674962 AAAAATTTCAAAA
1 AAAAA-TTCAAAA
62674975 ATTATATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.37
20 23 0.53
21 4 0.09
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATAATTAT
Found at i:62674990 original size:24 final size:25
Alignment explanation
Indices: 62674957--62675005 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
62674947 TTTTAAAATA
*
62674957 TTTATAAAAATTTCAAAAAT-TATAT
1 TTTATAAAAAATT-AAAAATATATAT
62674982 TTTA-AAAAAATTAAAAATATATAT
1 TTTATAAAAAATTAAAAATATATAT
62675006 AAAAAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 12 0.55
25 4 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
TTTATAAAAAATTAAAAATATATAT
Found at i:62675009 original size:20 final size:20
Alignment explanation
Indices: 62674903--62675017 Score: 72
Period size: 20 Copynumber: 5.5 Consensus size: 20
62674893 CTCTCACAAC
62674903 AAAAATTACAAAATA-ATTATA
1 AAAAATTA-AAAATATA-TATA
* * * *
62674924 AATAATTCAAAATA-ATTTT
1 AAAAATTAAAAATATATATA
* * *
62674943 AAAATTTTAAAATATTTATA
1 AAAAATTAAAAATATATATA
* *
62674963 AAAATTTCAAAAATTATATTTTAA
1 AAAAATT-AAAAA-TATA-TAT-A
62674987 AAAAATTAAAAATATATATA
1 AAAAATTAAAAATATATATA
*
62675007 AAAAGTTAAAA
1 AAAAATTAAAA
62675018 TTTTTAAAAA
Statistics
Matches: 73, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
19 13 0.18
20 27 0.37
21 12 0.16
22 7 0.10
23 7 0.10
24 7 0.10
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAAATTAAAAATATATATA
Found at i:62681805 original size:11 final size:12
Alignment explanation
Indices: 62681791--62681827 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
62681781 TAGCAACTCA
62681791 ATTTT-ATAACT
1 ATTTTGATAACT
62681802 ATTTTGATAA-T
1 ATTTTGATAACT
*
62681813 ATTTTGATTACT
1 ATTTTGATAACT
62681825 ATT
1 ATT
62681828 ATTCCACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (12 bp):
ATTTTGATAACT
Found at i:62689902 original size:17 final size:16
Alignment explanation
Indices: 62689865--62689905 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
62689855 ATTACATAGG
62689865 TTTTATTTATTCATCT
1 TTTTATTTATTCATCT
62689881 TTTTATTTGATTC-TCT
1 TTTTATTT-ATTCATCT
62689897 TATTTATTT
1 T-TTTATTT
62689906 TAACCATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTATTTATTCATCT
Found at i:62689961 original size:24 final size:27
Alignment explanation
Indices: 62689924--62689973 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
62689914 ATTATTGCAA
62689924 TATTGTTCAAGCA-TTT-AATATTTGT
1 TATTGTTCAAGCATTTTCAATATTTGT
*
62689949 TATT-TTCATGCATTTTCAATATTTG
1 TATTGTTCAAGCATTTTCAATATTTG
62689974 GATCTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 7 0.32
26 8 0.36
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (27 bp):
TATTGTTCAAGCATTTTCAATATTTGT
Found at i:62698718 original size:54 final size:54
Alignment explanation
Indices: 62698651--62699596 Score: 797
Period size: 54 Copynumber: 17.5 Consensus size: 54
62698641 CTCAATTTAC
* * * ***
62698651 TACTTACAGGATTTTTCGAATCTTGCAGTTTGCCGATTTAAGATTATAACCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * *
62698705 TACTTACAAGATTTTTCGAATCTTGCAGCTCGTCAATTTAATATCACAACCTTG
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
*** * * *
62698759 TACTTACAAGATTTTTCGAATCTTATGGCTCACCGATTTAAGATCACAGCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * * * *
62698813 TACTTATAAGATTTTTTGAATGTTGTAGTTGGTCGATTTAAAATCGCAACCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* ** * *
62698867 TACTTACAAGATTTTTCGAATCTTGC-GACTCACTAATTTAATATCGCAGCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAG-CTCGCCGATTTAAGATCGCAACCTTA
* * * * * * * ** *
62698921 TACTTACAGGATTTTTTGACTCTTGCAACTCACCGATTTTAGATCACATGCTTG
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * *
62698975 TACTTACACGATTTTTTGAATCTTAG-GGCTCGTCGATTTAAAATCGCAGCCTTA
1 TACTTACAAGATTTTTCGAATCTT-GCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * **
62699029 TACTTACAAGATTTTTCGAATCTTGCGGCTCACTGATTTAAGATTGCAGTCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* ** * * *
62699083 TACTTACAAGATTTTTCAAATCTTGTGGCTCGCCGATTTAATATTGCAGCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
*** * * * * * *
62699137 TACTTACAAGATTTTTCGAATCTTATGGTTGGCCAATTTAGGATCTCAAACTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * *
62699191 TACTTACAAGATTTTTTGAATCTTGCAACTTGCCGATTTAAGATCACACCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * * *
62699245 TACTTATAGGATTTTTCAAATCTTGCAGTTTGTCGATTTAAGATTGCAACCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
62699299 TACTTACAAGACTTTTT-GAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
1 TACTTACAAGA-TTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * * *
62699353 TACTTATAAGA-TTTTCTGAATCTTACGGTTGGCCAATTTAATATCGCAACCTTA
1 TACTTACAAGATTTTTC-GAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* * * * * *
62699407 TACTTACAATA-TTTTCTAAATCTTGCGGCTCACCAATTTAAGATCGCAGCCTTA
1 TACTTACAAGATTTTTC-GAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
** * * * * ** * * *
62699461 TACTTGTAGGATTTTCCGAATCTTGC-GATTTGCATATTTAAGACCACAATCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAG-CTCGCCGATTTAAGATCGCAACCTTA
* * ** * *
62699515 TACTTACAAGATTTTTTGAATCTTGCGGCTCATCGATTTAAGATCTCAGCCTTA
1 TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
* *
62699569 TACTTACAAGATTTCTAGAATCTTGCAG
1 TACTTACAAGATTTTTCGAATCTTGCAG
62699597 TTGCTGGTTT
Statistics
Matches: 713, Mismatches: 169, Indels: 20
0.79 0.19 0.02
Matches are distributed among these distances:
52 4 0.01
53 3 0.00
54 695 0.97
55 11 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (54 bp):
TACTTACAAGATTTTTCGAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTA
Found at i:62698852 original size:108 final size:108
Alignment explanation
Indices: 62698651--62699599 Score: 882
Period size: 108 Copynumber: 8.8 Consensus size: 108
62698641 CTCAATTTAC
* * * * *** *
62698651 TACTTACAGGATTTTTCGAATCTTGCAGTTTGCCGATTTAAGATTATAACCTTATACTTACAAGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAGA
* * * * * * *
62698716 TTTTTCGAATCTTGCAGCTCGTCAATTTAATATCACAACCTTG
66 TTTTTCGAATCTTGCAGTTGGCCGATTTAAGATCGCAACCTTA
** * * *
62698759 TACTTACAAGATTTTTCGAATCTTATGGCTCACCGATTTAAGATCACAGCCTTATACTTATAAGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAGA
* * * * *
62698824 TTTTTTGAATGTTGTAGTTGGTCGATTTAAAATCGCAACCTTA
66 TTTTTCGAATCTTGCAGTTGGCCGATTTAAGATCGCAACCTTA
* * ** * *
62698867 TACTTACAAGATTTTTCGAATCTTGCGACTCACTAATTTAATATCGCAGCCTTATACTTACAGGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAGA
* * ** ** * * ** *
62698932 TTTTTTGACTCTTGCAACTCACCGATTTTAGATCACATGCTTG
66 TTTTTCGAATCTTGCAGTTGGCCGATTTAAGATCGCAACCTTA
* * * *
62698975 TACTTACACGATTTTTTGAATCTTAG-GGCTCGTCGATTTAAAATCGCAGCCTTATACTTACAAG
1 TACTTACAAGATTTTTCGAATCTT-GCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAG
* * ** * * **
62699039 ATTTTTCGAATCTTGCGGCTCACTGATTTAAGATTGCAGTCTTA
65 ATTTTTCGAATCTTGCAGTTGGCCGATTTAAGATCGCAACCTTA
* * * *
62699083 TACTTACAAGATTTTTCAAATCTTGTGGCTCGCCGATTTAATATTGCAGCCTTATACTTACAAGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAGA
*** * * * *
62699148 TTTTTCGAATCTTATGGTTGGCCAATTTAGGATCTCAAACTTA
66 TTTTTCGAATCTTGCAGTTGGCCGATTTAAGATCGCAACCTTA
* ** * * * * *
62699191 TACTTACAAGATTTTTTGAATCTTGCAACTTGCCGATTTAAGATCACACCCTTATACTTATAGGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAGA
* * * *
62699256 TTTTTCAAATCTTGCAGTTTGTCGATTTAAGATTGCAACCTTA
66 TTTTTCGAATCTTGCAGTTGGCCGATTTAAGATCGCAACCTTA
* * *
62699299 TACTTACAAGACTTTTT-GAATCTTGCAGCTCGCCGATTTAAGATCGCAACCTTATACTTATAAG
1 TACTTACAAGA-TTTTTCGAATCTTGCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAG
* * * *
62699363 A-TTTTCTGAATCTTACGGTTGGCCAATTTAATATCGCAACCTTA
65 ATTTTTC-GAATCTTGCAGTTGGCCGATTTAAGATCGCAACCTTA
* * * * ** *
62699407 TACTTACAATA-TTTTCTAAATCTTGCGGCTCACCAATTTAAGATCGCAGCCTTATACTTGTAGG
1 TACTTACAAGATTTTTC-GAATCTTGCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAG
* * ** * * *
62699471 ATTTTCCGAATCTTGC-GATTTGCATATTTAAGACCACAATCTTA
65 ATTTTTCGAATCTTGCAG-TTGGCCGATTTAAGATCGCAACCTTA
* ** *
62699515 TACTTACAAGATTTTTTGAATCTTGCGGCTCATCGATTTAAGATCTCAGCCTTATACTTACAAGA
1 TACTTACAAGATTTTTCGAATCTTGCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAGA
* *
62699580 TTTCTAGAATCTTGCAGTTG
66 TTTTTCGAATCTTGCAGTTG
62699600 CTGGTTTAAG
Statistics
Matches: 684, Mismatches: 147, Indels: 20
0.80 0.17 0.02
Matches are distributed among these distances:
106 4 0.01
107 7 0.01
108 658 0.96
109 15 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (108 bp):
TACTTACAAGATTTTTCGAATCTTGCGGCTCGCCGATTTAAGATCGCAGCCTTATACTTACAAGA
TTTTTCGAATCTTGCAGTTGGCCGATTTAAGATCGCAACCTTA
Found at i:62699665 original size:94 final size:94
Alignment explanation
Indices: 62699552--62699739 Score: 270
Period size: 94 Copynumber: 2.0 Consensus size: 94
62699542 GCTCATCGAT
* * ***
62699552 TTAAGATCTCAGCCTTATACTTACAAGATTTCTAGAATCTTGCAGTTGCTGGTTTAAGATTACAA
1 TTAAGATCTCAGCCTTATACTTACAAGATTTCCAAAATCTTGCAGTTGCCAATTTAAGATTACAA
*
62699617 TTTTCTCATGCAATTGATTTCAACTTTAA
66 CTTTCTCATGCAATTGATTTCAACTTTAA
* *
62699646 TTAAGATC-CTAGTCTTATACTTACAAGATTTCCAAAATCTTGCAGTTGCCAATTTAAGATTGCA
1 TTAAGATCTC-AGCCTTATACTTACAAGATTTCCAAAATCTTGCAGTTGCCAATTTAAGATTACA
* *
62699710 ACTTTCTCATGCAGTTGATTTCAATTTTAA
65 ACTTTCTCATGCAATTGATTTCAACTTTAA
62699740 AGTAGCAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 1 0.01
94 82 0.99
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (94 bp):
TTAAGATCTCAGCCTTATACTTACAAGATTTCCAAAATCTTGCAGTTGCCAATTTAAGATTACAA
CTTTCTCATGCAATTGATTTCAACTTTAA
Found at i:62699861 original size:22 final size:23
Alignment explanation
Indices: 62699836--62699886 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
62699826 TTGTTCGCAT
*
62699836 TATTTT-ACAATACAGTTTGCAA
1 TATTTTCACAATACAGCTTGCAA
*
62699858 TATTTTCACAATACAGCTTGCAG
1 TATTTTCACAATACAGCTTGCAA
62699881 TATTTT
1 TATTTT
62699887 GTAGTACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (23 bp):
TATTTTCACAATACAGCTTGCAA
Found at i:62700458 original size:32 final size:31
Alignment explanation
Indices: 62700406--62700507 Score: 134
Period size: 32 Copynumber: 3.2 Consensus size: 31
62700396 TTTTTAGACG
*
62700406 TTGATTAGTA-TAATCCTTGAAAATATTGGGA
1 TTGATTAGTACAAATCCTTGAAAA-ATTGGGA
62700437 TTGATTAGTACAAATCCTTGAAAAAATTGGGA
1 TTGATTAGTACAAATCCTTG-AAAAATTGGGA
* * *
62700469 TTGATTAATACAAACCCTTGAAGAAATTAGGA
1 TTGATTAGTACAAATCCTTGAA-AAATTGGGA
62700501 TTGATTA
1 TTGATTA
62700508 AAAATTTAAC
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
31 12 0.19
32 48 0.75
33 4 0.06
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (31 bp):
TTGATTAGTACAAATCCTTGAAAAATTGGGA
Found at i:62702172 original size:20 final size:20
Alignment explanation
Indices: 62702149--62702188 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
62702139 TTGAGTATCG
62702149 ATTAAAT-TTTAATTTTAAAA
1 ATTAAATATTTAA-TTTAAAA
62702169 ATTAAATATTTAATTTAAAA
1 ATTAAATATTTAATTTAAAA
62702189 TAATTGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTAAATATTTAATTTAAAA
Found at i:62702405 original size:3 final size:3
Alignment explanation
Indices: 62702397--62702423 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
62702387 AACAAGGCAA
62702397 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
62702424 GAACACATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:62706940 original size:13 final size:13
Alignment explanation
Indices: 62706924--62706974 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
62706914 TTTAAACTAA
62706924 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
62706937 ACTTCTT-AAAAGT
1 ACTT-TTCAAAAGC
*
62706950 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
62706963 ACTTTTCAAAAG
1 ACTTTTCAAAAG
62706975 TAATGAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
12 6 0.20
13 19 0.63
14 5 0.17
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:62707427 original size:11 final size:11
Alignment explanation
Indices: 62707413--62707454 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
62707403 ATTTTAATGA
62707413 TATTTTGTTAC
1 TATTTTGTTAC
* *
62707424 TATTTTGCTAT
1 TATTTTGTTAC
*
62707435 TATATTGTTAC
1 TATTTTGTTAC
62707446 TATTTTGTT
1 TATTTTGTT
62707455 GTTATTGTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.19, C:0.07, G:0.10, T:0.64
Consensus pattern (11 bp):
TATTTTGTTAC
Found at i:62707459 original size:22 final size:21
Alignment explanation
Indices: 62707383--62707460 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
62707373 GTTACTGTTG
* *
62707383 TTTTGTTGTTATTTGTTGCCA
1 TTTTGTTGTTATTTGTTACTA
** *
62707404 TTTTAATGATATTTTGTTACTA
1 TTTTGTTGTTA-TTTGTTACTA
* *
62707426 TTTTGCTATTATATTGTTACTA
1 TTTTGTTGTTAT-TTGTTACTA
62707448 TTTTGTTGTTATT
1 TTTTGTTGTTATT
62707461 GTTTAGATAT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
21 10 0.23
22 34 0.77
ACGTcount: A:0.18, C:0.06, G:0.13, T:0.63
Consensus pattern (21 bp):
TTTTGTTGTTATTTGTTACTA
Found at i:62713679 original size:76 final size:77
Alignment explanation
Indices: 62713599--62713811 Score: 340
Period size: 76 Copynumber: 2.8 Consensus size: 77
62713589 ATTGAATAAC
* *
62713599 AAGGGGTTGCTAAGTGCTGATTCCCCGACT-ATTTGGTGGTTGCTAAGTGCTGATTCCACTATAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCA-TTGGTGGTTGCTAAGTGCTGATTCCACCATAT
* *
62713663 CCTTGAATGT-GA
65 CCTTGAAAGTAAA
62713675 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
62713740 CTTGAAAGTAAA
66 CTTGAAAGTAAA
* * *
62713752 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACC
62713812 GATAACGGTT
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
76 69 0.54
77 59 0.46
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
CTTGAAAGTAAA
Found at i:62713697 original size:43 final size:43
Alignment explanation
Indices: 62713636--62713775 Score: 140
Period size: 33 Copynumber: 3.5 Consensus size: 43
62713626 ACTATTTGGT
*
62713636 GGTTGCTAAGTGCTGATTCCACTATATCCTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAAGG
*
62713679 GGTTGCTAAGTGCTGATTCC-CCGA-AT-C----AT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACC-ATATCCTTGAATGTGAAAGG
* *
62713712 GGTTGCTAAGTGCTGATTCCACCATATCCTTGAAAGTAAAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCCTTGAATGT-GAAAGG
*
62713756 GGTTGCTAAGTGTTGATTCC
1 GGTTGCTAAGTGCTGATTCC
62713776 CCGAATCACT
Statistics
Matches: 78, Mismatches: 6, Indels: 25
0.72 0.06 0.23
Matches are distributed among these distances:
33 22 0.28
34 4 0.05
35 1 0.01
36 2 0.03
37 2 0.03
39 1 0.01
40 1 0.01
41 1 0.01
42 3 0.04
43 21 0.27
44 20 0.26
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCATATCCTTGAATGTGAAAGG
Found at i:62713721 original size:33 final size:34
Alignment explanation
Indices: 62713679--62713813 Score: 114
Period size: 33 Copynumber: 3.7 Consensus size: 34
62713669 ATGTGAAAGG
62713679 GGTTGCTAAGTGCTGATTCC-CCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGGT
*
62713712 GGTTGCTAAGTGCTGATTCCACC-ATATCCTTGAAAGT
1 GGTTGCTAAGTGCTGATTCCACCGA-ATCATTG---GT
* *
62713749 AAAAAGGGGTTGCTAAGTGTTGATTCC-CCGAATCACTGGT
1 -------GGTTGCTAAGTGCTGATTCCACCGAATCATTGGT
*
62713789 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
62713814 TAACGGTTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 27
0.71 0.05 0.23
Matches are distributed among these distances:
33 39 0.48
34 12 0.15
37 2 0.02
40 2 0.02
43 7 0.09
44 20 0.24
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCATTGGT
Found at i:62716418 original size:16 final size:16
Alignment explanation
Indices: 62716387--62716416 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62716377 ATGTGTCTAT
62716387 TTTTTTAAGATATTTA
1 TTTTTTAAGATATTTA
62716403 TTTTTTAA-ATATTT
1 TTTTTTAAGATATTT
62716417 TACTATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTTAAGATATTTA
Found at i:62716863 original size:23 final size:23
Alignment explanation
Indices: 62716819--62716863 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
62716809 ATTGTCGTTT
**
62716819 TTTCACTTTGATATTTTTTTTTG
1 TTTCACTTTGATATTTAATTTTG
*
62716842 TTTCATTTTGATATTTAATTTT
1 TTTCACTTTGATATTTAATTTT
62716864 TATATTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.69
Consensus pattern (23 bp):
TTTCACTTTGATATTTAATTTTG
Found at i:62717445 original size:27 final size:26
Alignment explanation
Indices: 62717390--62717445 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
62717380 CTTTAATCAT
*
62717390 TTTTTAAAATTTTAATGACTTTCATA
1 TTTTTAAAATTTTAATGACTTTCAAA
* *
62717416 TTTTTAAATTATTTAAT-ATTTTCTAAA
1 TTTTTAAAAT-TTTAATGACTTTC-AAA
62717443 TTT
1 TTT
62717446 AAAAGTTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTTAAAATTTTAATGACTTTCAAA
Found at i:62734408 original size:23 final size:22
Alignment explanation
Indices: 62734364--62734405 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62734354 GCTTCAATTT
*
62734364 TTTTTTTAAAATATTAAATTAA
1 TTTTTTAAAAATATTAAATTAA
*
62734386 TTTTTTAAAAATCTTAAATT
1 TTTTTTAAAAATATTAAATT
62734406 TAAAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTTTAAAAATATTAAATTAA
Found at i:62739474 original size:21 final size:21
Alignment explanation
Indices: 62739450--62739490 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62739440 TCTTTTAAAA
*
62739450 AGATATAACTATTAAAGTAAG
1 AGATACAACTATTAAAGTAAG
*
62739471 AGATACAACTATTCAAGTAA
1 AGATACAACTATTAAAGTAA
62739491 CTATCTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (21 bp):
AGATACAACTATTAAAGTAAG
Found at i:62749880 original size:57 final size:59
Alignment explanation
Indices: 62749773--62749883 Score: 140
Period size: 57 Copynumber: 1.9 Consensus size: 59
62749763 GCTACCCCTT
* * *
62749773 TTATTTTATTTTATTTTATTTATTATTAATAGTTATATTATTAATTTTTATTTTCCTAA
1 TTATTTTATTTTATTTTATTTATTATTAATACTTAGATTATTAATATTTATTTTCCTAA
*
62749832 TTATTTTA-TTTA-TTTATTTATTATTCTCATACTTAGATT-TTAA-ATTTATTTT
1 TTATTTTATTTTATTTTATTTATTA-T-TAATACTTAGATTATTAATATTTATTTT
62749884 AATTTTTCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
57 19 0.41
58 9 0.20
59 18 0.39
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (59 bp):
TTATTTTATTTTATTTTATTTATTATTAATACTTAGATTATTAATATTTATTTTCCTAA
Found at i:62749999 original size:6 final size:6
Alignment explanation
Indices: 62749967--62750022 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
62749957 TATCATTGAG
* *
62749967 TTTATT ATTATT TTTTTGT TTTA-T TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT
*
62750015 TTTGTT TT
1 TTTATT TT
62750023 AGTTGCTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
5 5 0.12
6 34 0.79
7 4 0.09
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (6 bp):
TTTATT
Found at i:62750022 original size:11 final size:11
Alignment explanation
Indices: 62749979--62750023 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
62749969 TATTATTATT
62749979 TTTTTGTTTTA
1 TTTTTGTTTTA
62749990 TTTTAT-TTTTA
1 TTTT-TGTTTTA
*
62750001 TTTTTATTTTTA
1 TTTTT-GTTTTA
62750013 TTTTTGTTTTA
1 TTTTTGTTTTA
62750024 GTTGCTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 1 0.03
11 18 0.60
12 11 0.37
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.82
Consensus pattern (11 bp):
TTTTTGTTTTA
Found at i:62750442 original size:17 final size:17
Alignment explanation
Indices: 62750409--62750442 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62750399 ATTAGAATGA
*
62750409 ATTTTTATCGATTTGTT
1 ATTTTTATCGATGTGTT
*
62750426 ATTTTTATTGATGTGTT
1 ATTTTTATCGATGTGTT
62750443 TTGAACTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.15, T:0.65
Consensus pattern (17 bp):
ATTTTTATCGATGTGTT
Found at i:62756354 original size:18 final size:20
Alignment explanation
Indices: 62756333--62756371 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
62756323 TATGTTTTTT
62756333 ATAGA-GACATAATT-TTCA
1 ATAGAGGACATAATTATTCA
*
62756351 ATAGAGGTCATAATTATTCA
1 ATAGAGGACATAATTATTCA
62756371 A
1 A
62756372 CTAATATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (20 bp):
ATAGAGGACATAATTATTCA
Found at i:62756385 original size:22 final size:22
Alignment explanation
Indices: 62756358--62756400 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
62756348 TCAATAGAGG
*
62756358 TCATAATTATTCAACTAATATC
1 TCATAACTATTCAACTAATATC
* *
62756380 TCATAACTATTCGAGTAATAT
1 TCATAACTATTCAACTAATAT
62756401 TATTTGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (22 bp):
TCATAACTATTCAACTAATATC
Found at i:62758624 original size:37 final size:37
Alignment explanation
Indices: 62758582--62758656 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
62758572 TTAAAACAAA
62758582 AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
1 AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
62758619 AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
1 AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
62758656 A
1 A
62758657 TTAAAAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (37 bp):
AATACTATTTAATGCAACATTTAAGAATTATTTCAAG
Found at i:62761625 original size:20 final size:20
Alignment explanation
Indices: 62761607--62761718 Score: 91
Period size: 20 Copynumber: 5.5 Consensus size: 20
62761597 CCTTTTTTTT
**
62761607 TATTCTTTCATAATTTTTTT
1 TATTCTTTCATAATTTTTGG
* *
62761627 TATTTTTGTTATAA-TTTTGG
1 TATTCTT-TCATAATTTTTGG
* *
62761647 ATATACTTTCATAATTATTGG
1 -TATTCTTTCATAATTTTTGG
* * *
62761668 TAATCTCTCATAATTTTTAG
1 TATTCTTTCATAATTTTTGG
*
62761688 TATTTTTTTCATAATTTTTGG
1 TA-TTCTTTCATAATTTTTGG
*
62761709 TATGCTTTCA
1 TATTCTTTCA
62761719 AAATAAAATT
Statistics
Matches: 69, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
20 38 0.55
21 31 0.45
ACGTcount: A:0.24, C:0.09, G:0.08, T:0.59
Consensus pattern (20 bp):
TATTCTTTCATAATTTTTGG
Found at i:62761625 original size:21 final size:22
Alignment explanation
Indices: 62761599--62761644 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
62761589 ATCAAATTCC
62761599 TTTTTTTTTATTCTT-TCATAA
1 TTTTTTTTTATTCTTGTCATAA
* *
62761620 -TTTTTTTTATTTTTGTTATAA
1 TTTTTTTTTATTCTTGTCATAA
62761641 TTTT
1 TTTT
62761645 GGATATACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 13 0.62
21 5 0.24
22 3 0.14
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTTTTTATTCTTGTCATAA
Found at i:62762511 original size:20 final size:20
Alignment explanation
Indices: 62762388--62762787 Score: 128
Period size: 20 Copynumber: 20.9 Consensus size: 20
62762378 TATAATAGGA
* * *
62762388 TACCAAGAATTATAAGAAAG
1 TACCAAAAATTATGAGGAAG
* * * *
62762408 TACCAAAATTTATAAAGAAC
1 TACCAAAAATTATGAGGAAG
*
62762428 TACCAAAACTTATGA-GAATG
1 TACCAAAAATTATGAGGAA-G
* * * *
62762448 AATCAAAATTTATGAGGAAA
1 TACCAAAAATTATGAGGAAG
** ** * *
62762468 TACCAAAAAACACAATGAAT
1 TACCAAAAATTATGAGGAAG
62762488 TACCAAAAATTATGAGGAAG
1 TACCAAAAATTATGAGGAAG
* *
62762508 TACC--AAA--A-GATGTA-
1 TACCAAAAATTATGAGGAAG
* ** *
62762522 TA--AAAAATTACGACAAAA
1 TACCAAAAATTATGAGGAAG
* *
62762540 TA-CAAAAA-AATGAGTAAG
1 TACCAAAAATTATGAGGAAG
62762558 TACCAAAAATTATGAGCGAA-
1 TACCAAAAATTATGAG-GAAG
* * * *
62762578 TACTAAAAATAACGAGGGA-
1 TACCAAAAATTATGAGGAAG
** *
62762597 TA-CAAAAA--AAAAGGAAT
1 TACCAAAAATTATGAGGAAG
* *
62762614 TACCAAAAA--ATGTGGATG
1 TACCAAAAATTATGAGGAAG
* * *
62762632 CACCAAAAATTATGAAGATG
1 TACCAAAAATTATGAGGAAG
*
62762652 TACAAAAAAATTATGAGAGAA-
1 TAC-CAAAAATTATGAG-GAAG
* *
62762673 TACTAAAAAATATGAGGAAG
1 TACCAAAAATTATGAGGAAG
62762693 TACC-AAAATTATGAGAGAA-
1 TACCAAAAATTATGAG-GAAG
62762712 TACCATAAAATT-TGAGGAA-
1 TACCA-AAAATTATGAGGAAG
* ** ** * *
62762731 AAATAAAAAAAATGATGATG
1 TACCAAAAATTATGAGGAAG
62762751 TACCAAAACA-TATGAGGAAG
1 TACCAAAA-ATTATGAGGAAG
*
62762771 TACAAAAAATTATGAGG
1 TACCAAAAATTATGAGG
62762788 GAATATCAAG
Statistics
Matches: 277, Mismatches: 77, Indels: 52
0.68 0.19 0.13
Matches are distributed among these distances:
14 5 0.02
15 4 0.01
16 7 0.03
17 5 0.02
18 39 0.14
19 46 0.17
20 143 0.52
21 26 0.09
22 2 0.01
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (20 bp):
TACCAAAAATTATGAGGAAG
Found at i:62762680 original size:21 final size:21
Alignment explanation
Indices: 62762636--62762740 Score: 80
Period size: 21 Copynumber: 5.2 Consensus size: 21
62762626 TGGATGCACC
* *
62762636 AAAAATTATGA-AGATGTACAA
1 AAAAATTATGAGAGA-ATACTA
62762657 AAAAATTATGAGAGAATACTA
1 AAAAATTATGAGAGAATACTA
62762678 AAAAA-TATGAG-GAAGTAC--
1 AAAAATTATGAGAGAA-TACTA
* *
62762696 CAAAATTATGAGAGAATACCA
1 AAAAATTATGAGAGAATACTA
* * *
62762717 TAAAATT-TGAG-GAAAAATA
1 AAAAATTATGAGAGAATACTA
62762736 AAAAA
1 AAAAA
62762741 AATGATGATG
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.06
19 21 0.30
20 16 0.23
21 26 0.37
22 3 0.04
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (21 bp):
AAAAATTATGAGAGAATACTA
Found at i:62763139 original size:20 final size:20
Alignment explanation
Indices: 62763116--62763155 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
62763106 AGTAAATATA
62763116 AAAAAAAAATGAGGAAGTAT
1 AAAAAAAAATGAGGAAGTAT
** *
62763136 AAAAAATGATGAGGATGTAT
1 AAAAAAAAATGAGGAAGTAT
62763156 CCAAATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (20 bp):
AAAAAAAAATGAGGAAGTAT
Found at i:62764236 original size:11 final size:11
Alignment explanation
Indices: 62764222--62764310 Score: 64
Period size: 11 Copynumber: 8.5 Consensus size: 11
62764212 TTTAAAATAC
62764222 TTTTTTTTAAA
1 TTTTTTTTAAA
62764233 -TTTTTTT-AA
1 TTTTTTTTAAA
*
62764242 ---TTTTAAAA
1 TTTTTTTTAAA
*
62764250 TTTTTTTAAAA
1 TTTTTTTTAAA
*
62764261 TTTTTTTAAAA
1 TTTTTTTTAAA
*
62764272 TATTTTTTAAA
1 TTTTTTTTAAA
*
62764283 TACTTTTTT-AA
1 T-TTTTTTTAAA
*
62764294 TTTTTGTTTTAA
1 TTTTT-TTTAAA
62764306 TTTTT
1 TTTTT
62764311 AAAACAATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
7 4 0.06
8 2 0.03
9 2 0.03
10 10 0.15
11 35 0.53
12 13 0.20
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (11 bp):
TTTTTTTTAAA
Done.